MmuINT0146356 @ mm9
Intron Retention
Gene
ENSMUSG00000017664 | Slc35c2
Description
solute carrier family 35, member C2 [Source:MGI Symbol;Acc:MGI:2385166]
Coordinates
chr2:165103741-165106200:-
Coord C1 exon
chr2:165106117-165106200
Coord A exon
chr2:165103917-165106116
Coord C2 exon
chr2:165103741-165103916
Length
2200 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGC
5' ss Score
10.4
3' ss Seq
TCTCCCCTTGCTGCTTTCAGGTC
3' ss Score
11.44
Exon sequences
Seq C1 exon
GCCTCCAGAATCCCATTGACACCATGTTCCACCTGCAGCCACTCATGTTTCTGGGCCTCTTCCCTCTCTTTGCCATATTCGAAG
Seq A exon
GTACGCTCGGTCTTCTCCCTCTGGGTGCCATAGAACAGCAGATCCAGCATTGCCACTCTGAGCTCAGCACGGTGCTAGCCACAGAGGTTGCCCTGTGGTTTGGGAATAGGCAGACACACAGAATGACTAGCATCTCGTGAGACGAGGATGCAGAGGAATTAGGAGTAAAATGCAAGGACTCAGGGCAGAGGGCGAGGACAGCCCCAGAGGCACCTTTTAAATGCACAGGTCTGTCATATCCCCTTACAACCAGATGTGGAGGGCTGTTGTCATCCCTGTTCAGCAGGAGAAAGAAACCGAGGAAACGGGACGTTCAAAGCTTGCCCACAGTCCCATAGCTCATAAGCAAGCCAGACTATGTCCCCACAACCTGGCATCAGGAGGCTAGGCCCACTGTCACACTGTGCACTTGCCTCCTAGAGTGCAGAGCCCATGTCTGTCACAGGTGGGGTGTCTGGGCTGGAGGGGGCCATAGTAGAGCATGATTGGTGGGCGGGTGAACTGATGACGTCTGGATACCCTGGCAAGCAGGGCAAGAGGCTCGGCCATGGATGTTAGTCCGCATGGGCAGAGTGGTCCCTTCCACAGCTGGGGTTCGGGGGCAGCCTGGGTACATGGACAACTGTTCTATCTCCCATAGCTTTCAGAGGAGAGGCAAAGCCAGGGGGTGTACAAGGTGGACAGAATGTTGTCACCTGTCTTCCTCCAGTGCTTTGGGATTAGTCTTTGTCACTTGTTTACCCTCCTTCTCAGAGTCCCAACTGTCCTCAGGGTCATTACAGAAAATTCCATCCCACATCCATTTAAGTTTCAAGCAGCGAAGCGTCTCCAGCCTCCGTGAGGAAATTATTCCGCAGCCCCGTTGTCCAGGAAACTTGTGTGTGGAGCCTTCATGCTTTTCCTTTTTAAAATCTCTCCCCATTCCTTCATTATGCCCCTTGTAGCAAACACCACACTCGCCCCCTCCCAGGCCCTCTCACTGTTCCCGCTCTGCAAACCTCATCCGCAAGCCCCTGGTCGCCGCCACTTAGCAGAGCAGCATGGACTTAGCTCCTTTAATCTTCTCTGGTAAATTAATCCCCCAAGCGCCTTCATTACTTATGTTGCTCTTCCCCGAATTCCCTTCAATTTGCCTTTGCAGCGCTCTGAGCCCGGCACCAAACAAGATGGCTCACACGGCCAGGCTGCTGGCCTAGGGCATGCTGCTGTGGAATTTTGCACCCCTCCCCCTCTGAGCCCCCCAAAGTTCTCCTCTGCCTTCAGTGCTCTCCTGTGTCCACTGCGCCCAGTGGATAGTGACCTCACCCTCCCCTAACACACCCTGAGGCCTTACTGTGGGAAGAGCCCAGGAGCCCTTTAAGAAGGAGGGGCCCCTCTCCTGAAAATCGAAGCAAAAATTGGTGTGATATGCAGCGTGCTCTGGAACAAGGGGCTGTAGTCTCATCGTAGTTTACATATGTATGATTTGGGTCTTGTGTAGCCCAGGCTGGACTTGAGCTTTCTGGGTAGCTGATGCTTGAGCCAGTCCTCTGTCCCCCTGCCTCAGGTGCTGTGATTACAGCTGTGCACTGCCACCCCTCAGCTCGGGGCTTAAGGTGGAGGGTAGTTTTTGAGATAAGTTCATTAGGTCACTGCTTGCTGAAGAAGTGACAGTCTAGTCACTGTCCTGTCATTCTGTCAATAGGGAAACCCACAGCCAAAGGGGGCCATCTCCACCACAGTCCATACATAGCTTTATAGTAGCAAGACCCAGATGTGGGCTGGGCTGTATAGATGGGTGGTAGAGCATAAGGCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATACACGTGTACATGTATACTGACATGCACGTCATCTAACATGCATGTCATCTAAAGGTGAGGGCCCTACATCTGTACATTTTGTATCTGTATACAGTCAGCCTCCACCAGAGTCCACAGGTACAATTCCTCCTGTTCTGATAATGGACACGCATTGCCCTGGGCTCTGTAGTAGCCACCTTGGTCCCTGAGTCTCAGGCCATCTGTGGGGGACTATTTCAAAGCCCCCCTTCTTTCTCCTACCTCAGATAATCAGCTAGCCGCACTCCCCACCCCGCGATACCATGCTGAAGAAACATGGTAGCTGTTGAGTAGGGCCAGGAGGGCTGCGCAGGCCCCAGCCTCCCACTCTCCCCTTGCTGCTTTCAG
Seq C2 exon
GTCTCCACTTGTCCACCTCTGAGAAGATCTTCCGCTTCCAGGACACAGGGCTGCTCCTGTGGGTGCTTGGGAGCCTCCTCCTCGGTGGGATTCTGGCCTTCGGTTTGGGCTTCTCCGAGTTCCTCCTGGTCTCCAGAACGTCAAGCCTCACACTCTCCATCGCTGGCATCTTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000017664-Slc35c2:NM_144893:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0315111=TPT=PD(48.2=93.1)
A:
NA
C2:
PF0315111=TPT=FE(38.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: